RetrogeneDB ID: retro_meug_1331

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold37028:14337..15205(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: DET1
• Ensembl ID: ENSMEUG00000016149
• Aliases: None
• Description: de-etiolated homolog 1 (Arabidopsis) [Source:HGNC Symbol;Acc:25477]

Sequence

>retro_meug_1331
GAGGATGACTTGCTCACCCTGTCAGCTGTCTACCCTGAGGAAAAACAAGACAGCCAAACAGGCATGGCCAACCGCTACAA
GGAGCCTTTCAATAATCCCCTAAAGCACTGGCTACTGATATACTTGTGGCACTGGGTAGAGCAGGATGATAGTGCCTTGG
CCAAGAGGCGCTTCTTCTAGTATTTTAACTAACTATGATAGCTGGGCATATGGAAGATGCAGCTTCTAAATGAAAATCAC
CTCTTTATCAAGTACACTAGTGAGGATGTAGTGATACTATGGGTCACAGAACCATCACAGCTTTCCTCTTTGTTTTGTAC
AATATGGTAATGGCAGAGGTGAAAGTAGTGTTTGAGAATTCTTAGGATGAATTTCTGGAGCTCTTTGAGAATTTCTGTGA
CCTCTTCCACAACTCTACCCTGCACAGTGAGGCTGTCCAGTTTTCCTGTTTAGCTTTTATCAACAAATTTGCCAGGCAGA
TCCAGTGCCAATTTAAAGACACTATTGTAAATGCAAAGTATGGAGGGCACACAGAGGCAGTATGGCGGCTGCTTGGTCAG
CTCCCCATCAGCGCCCAGTCATGCAGTGGCAGTCCCCACCTTGATCTACCTCCTCTGCTATGATGATAAGCAGGTTTCAT
TTATGGAGCCCCCCCAAGACTTGTGGAGATCACCCAATCAGGTTCTATGCCTAGGATTCTGGTCTGCTCAAGTTTGAGAT
CCAGACAGGCCTCCTGGGCCACCCCATCAGCCACACAATCTGCCACTTGGTCACCTTCACCTTCCACCCTTTTGAGCCTT
TTGCCATCTCAGTGCAGAGCAGTAATGACAAATGAGTGGTGAACTTCCATATGCGGCACAGTTGCACA

Alignment

ORF - retro_meug_1331 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.04 %
• Parental protein coverage: 52.63 %
• Number of stop codons detected: 7
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  EDDLLTLSAVYPEVQRDSQTGMANPYKEPFINSLKHRLLVYLWRRAEQDGSAMAKRRFFQYFDQLRQLRM
          EDDLLTLSAVYPE...DSQTGMAN.YKEPF.N.LKH.LL.YLW...EQD.SA.AKRRFF.YF..L..L..
Retrocopy EDDLLTLSAVYPEEKQDSQTGMANRYKEPFNNPLKHWLLIYLWHWVEQDDSALAKRRFF*YFN*L**LGI

Parental  WKMQLLDENHLFIKYTSEDVVTLRVTDPSQPS-FFVVYNMVTTEVIAVFENTSDELLELFENFCDLFRNA
          WKMQLL.ENHLFIKYTSEDVV.L.VT.PSQ.S..FV.YNMV..EV..VFEN..DE.LELFENFCDLF.N.
Retrocopy WKMQLLNENHLFIKYTSEDVVILWVTEPSQLS<LFVLYNMVMAEVKVVFENS*DEFLELFENFCDLFHNS

Parental  TLHSEAVQFPCSASSNNFARQIQRRXXXXXXXXKYGGHTEAVQRLLGQLPISAQSYSGS-PYLDLSLFSY
          TLHSEAVQF.C.A..N.FARQIQ..........KYGGHTEAV.RLLGQLPISAQS.SGS.P.L...L..Y
Retrocopy TLHSEAVQFSCLAFINKFARQIQCQFKDTIVNAKYGGHTEAVWRLLGQLPISAQSCSGS>PTL-IYLLCY

Parental  DDKWVSVMER-PKTCGDHPIRFYARDSGLLKFEIQAGLLGRPINHTVLRLVAFTLHPFEPFAISVQRTNA
          DDK.VS.ME..PKTCGDHPIRFYA.DSGLLKFEIQ.GLLG.PI.HT...LV.FT.HPFEPFAISVQ..N.
Retrocopy DDKQVSFMEP>PKTCGDHPIRFYA*DSGLLKFEIQTGLLGHPISHTICHLVTFTFHPFEPFAISVQSSND

Parental  EYVVNFHMRHSCT
          ..VVNFHMRHSCT
Retrocopy K*VVNFHMRHSCT

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_1331 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1331 was not experimentally validated.

Homology

Retrocopy orthology:

Macropus eugenii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000016149	1 retrocopy	retro_meug_1331 ,
Ictidomys tridecemlineatus	ENSSTOG00000021107	1 retrocopy	retro_itri_1440,